Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals

Xiaohui Xie, Jun Lu, E. J. Kulbokas, Todd R. Golub, Vamsi Mootha, Kerstin Lindblad-Toh, Eric S. Lander () and Manolis Kellis ()
Additional contact information
Xiaohui Xie: Broad Institute of MIT and Harvard
Jun Lu: Broad Institute of MIT and Harvard
E. J. Kulbokas: Broad Institute of MIT and Harvard
Todd R. Golub: Broad Institute of MIT and Harvard
Vamsi Mootha: Broad Institute of MIT and Harvard
Kerstin Lindblad-Toh: Broad Institute of MIT and Harvard
Eric S. Lander: Broad Institute of MIT and Harvard
Manolis Kellis: Broad Institute of MIT and Harvard

Nature, 2005, vol. 434, issue 7031, 338-345

Abstract: Abstract Comprehensive identification of all functional elements encoded in the human genome is a fundamental need in biomedical research. Here, we present a comparative analysis of the human, mouse, rat and dog genomes to create a systematic catalogue of common regulatory motifs in promoters and 3′ untranslated regions (3′ UTRs). The promoter analysis yields 174 candidate motifs, including most previously known transcription-factor binding sites and 105 new motifs. The 3′-UTR analysis yields 106 motifs likely to be involved in post-transcriptional regulation. Nearly one-half are associated with microRNAs (miRNAs), leading to the discovery of many new miRNA genes and their likely target genes. Our results suggest that previous estimates of the number of human miRNA genes were low, and that miRNAs regulate at least 20% of human genes. The overall results provide a systematic view of gene regulation in the human, which will be refined as additional mammalian genomes become available.

Date: 2005
References: Add references at CitEc
Citations: View citations in EconPapers (3)

Downloads: (external link)
https://www.nature.com/articles/nature03441 Abstract (text/html)
Access to the full text of the articles in this series is restricted.

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:nature:v:434:y:2005:i:7031:d:10.1038_nature03441

Ordering information: This journal article can be ordered from
https://www.nature.com/

DOI: 10.1038/nature03441

Access Statistics for this article

Nature is currently edited by Magdalena Skipper

More articles in Nature from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().